simpleEstimate {splatter} | R Documentation |
Estimate simulation parameters for the simple simulation from a real dataset.
simpleEstimate(counts, params = newSimpleParams()) ## S3 method for class 'SingleCellExperiment' simpleEstimate(counts, params = newSimpleParams()) ## S3 method for class 'matrix' simpleEstimate(counts, params = newSimpleParams())
counts |
either a counts matrix or a SingleCellExperiment object containing count data to estimate parameters from. |
params |
SimpleParams object to store estimated values in. |
The nGenes
and nCells
parameters are taken from the size of the
input data. The mean parameters are estimated by fitting a gamma distribution
to the library size normalised mean expression level using
fitdist
. See SimpleParams
for more
details on the parameters.
SimpleParams object containing the estimated parameters.
# Load example data library(scater) set.seed(1) sce <- mockSCE() params <- simpleEstimate(sce) params